transitiontrees

0.1.2

Transition Trajectories and Dynamics of Variable-Length Pathways or Sequences

0packages depend

430downloads / year

99.2%test coverage

12/13checks pass

Overview

About

Maintained by Mohammed SaqrFirst published 2026-06-181 releasesCRAN page ↗GitHub ↗

Analyzes transition trajectories in event, sequence, and ordered data, focusing on how states follow one another, how far processes unfold, and where pathways branch or converge. Trajectories are modeled using variable-order prediction suffix trees (Ron, Singer, & Tishby, 1996) doi:10.1023/A:1026490906255, implemented in both frequency-based and prediction-based forms. The framework includes multiple pruning, validation, and smoothing techniques to ensure model robustness. Visualization options include transition trees, radial sunburst diagrams, transition heatmaps, and forward trajectory trees.

Install

R (CRAN)pak (dev)Fedora (COPR)openSUSE (OBS)

install.packages("transitiontrees", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("mohsaqr/transitiontrees")

Development version from mohsaqr/transitiontrees. Installs pak first if it is not already available.

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-transitiontrees

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-transitiontrees

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

1NOTE12OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 18.3 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.62

99.2%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-19
7 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 679 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 29%
Documented parameters: 94%
Return-value docs: 100%
References docs: 6%

Downloads

430

CRAN downloads in the past year

Rank #23,361 · ~1/day · ~36/mo

Releases R versions

Daily download trend is not available in this view yet.

21230 days

43090 days

4301 year

Compare downloads with other packages →

Repository

GitHub ↗ mohsaqr/transitiontrees

0Stars

1Forks

0Open issues

0Open PRs

0Releases

17Commits

3Contributors

17 commits · Last activity 2026-07-12

Forks over time

2026-06-08 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/mohsaqr/transitiontrees on 2026-07-31.

Continuous integration (1)

GitHub Actions

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1

Imports (4)

ggplot2grDevicesstatsutils

LinkingTo (0)

none

Suggests (6)

testthat knitr rmarkdown visNetwork tna Nestimate

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (2)

Maintainer (1)

Mohammed Saqr

Author, Maintainer, Copyright holder

Authors (2)

Mohammed Saqr

Author, Maintainer, Copyright holder

Sonsoles López-Pernas

Author

Mohammed Saqr

Author, Maintainer, Copyright holder

Package Timeline

1 release. R releases are shown for context.

0.1.2Latest
2026-06-18 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-06-18
Total releases: 1 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.1
Bundled data: 115 KB / 4 files
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

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